| Literature DB >> 33981663 |
Yingping Wu1, Zhiqiang Zhu1, Jianyong Wu1, Wenzi Bi1, Wei Xu1, Xiaoping Xia1, Dongsheng Han2.
Abstract
Background: Hepatitis B surface antigen (HBsAg) and viral load are important clinical indicators for antiviral therapy. Few studies have evaluated viral sequence biomarkers predicting the risk of hepatocellular carcinoma (HCC) in the stage, which show a low serological response (HBsAg < 100 IU/ml) and high viral levels (HBV DNA > 2,000 IU/ml). This study aims to determine the trend of the biological prevalence within the pre-S/S regions of special model of inactive CHB infection.Entities:
Keywords: genome diversity; inactive HBsAg carrier; pre-S/S region mutation; reactivation phase; selective pressure
Year: 2021 PMID: 33981663 PMCID: PMC8107265 DOI: 10.3389/fpubh.2021.633792
Source DB: PubMed Journal: Front Public Health ISSN: 2296-2565
Figure 1Bayesian consensus phylogeny of HBV isolates for genotyping analysis. The phylogram represents a consensus of 28 HBV sequences from model of inactive CHB infection. Phylogenetic trees were constructed for sequences from both the experimental group (red) and the reference sequences of HBV whole genome downloaded from NCBI (green) with a Bayesian method. Posterior probabilities exceeding 0.5 are shown in the branches. From the phylogenetic analysis, 7 viral strains belong to genotype C and 21 strains are genotype B.
Figure 2HBV nucleic acid complexity for the experimental group and control group (HCC). The colored bars indicate the complexity of each nucleotide for the experimental group (red lines) and control group (blue lines) for the full-length HBV genome. The insertions were discarded. Epitope distribution is as follows: B cell epitopes (purple), HLAI T cell epitopes (yellow), HLA II T cell epitopes (carnation), overlap of two types of epitopes (green), overlap of three types of epitopes (blue).
Figure 3(A–D) Mean sequence diversity across genotypes among baseline sequences identified by Shannon entropy in different regions of the HBV genome. Error bars indicate SEM; *** indicates p < 0.001. HBx, hepatitis B X; HBsAg.
Figure 4(A,B) The dN/dS of the S gene was verified by a sliding window analysis using the KaKs calculator (window length, 57 nt; window step, 6 nt).
Codons in the HBV pre-S/S regions under positive selection pressure.
| pre-S1 | 47 L | 1.000** | 4.221 ± 0.830 |
| 60 A | 0.992** | 4.208 ± 1.029 | |
| 62 A | 0.955* | 3.984 ± 0.575 | |
| 73 G | 0.984* | 3.402 ± 0.592 | |
| 84 I | 0.978* | 3.435 ± 0.525 | |
| 90 A | 0.969* | 4.132 ± 1.120 | |
| 128 H | 0.979* | 3.959 ± 1.284 | |
| pre-S2 | 135 R | 0.963* | 3.646 ± 1.472 |
| 138 Q | 0.953* | 4.217 ± 0.838 | |
| 139 L | 0.950* | 4.027 ± 1.230 | |
| 141 P | 1.000** | 4.221 ± 0.830 | |
| 177 N | 0.977* | 4.159 ± 1.089 | |
| S | 374 Y | 0.998** | 4.219 ± 0.835 |
| 387 M | 0.988* | 4.206 ± 0.857 | |
| 221 T | 0.991** | 3.441 ± 0.512 | |
| 300 I | 0.957* | 3.324 ± 0.717 |
Positively selected sites based on naive empirical Bayes (NEB) analysis (*p > 95%; **p > 99%). ω > 1, means that significantly positive selection is for adaptive protein evolution.
Figure 5(A,B) Homologous modeling analysis of sites of positive selection in HBsAg. The blue highlights the presence of point mutations within HBsAg and the green shows the HBsAg structure.